Closed pierucci closed 8 years ago
My laptop is a 64bit Linux (Lubuntu). No problem on my MS Windows 32bit computer at work.
Test tabular input: ............................ *** caught segfault *** address 0xc80a0010, cause 'memory not mapped' Traceback: 1: get0(oNam, envir = ns) 2: getExportedValue(pkg, name) 3: lazyeval::all_dots 4: mutate_.tbl_df(parameters, .dots = x) 5: dplyr::mutate_(parameters, .dots = x) 6: FUN(X[[i]], ...) 7: lapply(x, f) 8: eval_state_list(get_states(model), parameters) 9: eval_model(model = model, parameters = parameters, cycles = cycles, init = init, method = method) 10: eval_newdata(., model = uneval_model, old_parameters = old_parameters) 11: eval(expr, envir, enclos) 12: eval(args[[j]]$expr, envir = env) 13: do_.rowwise_df(., .mod = ~eval_newdata(., model = uneval_model, old_parameters = old_parameters)) 14: dplyr::do_(., .mod = ~eval_newdata(., model = uneval_model, old_parameters = old_parameters)) 15: function_list[[i]](value) 16: freduce(value, `_function_list`) 17: `_fseq`(`_lhs`) 18: eval(expr, envir, enclos) 19: eval(quote(`_fseq`(`_lhs`)), env, env) 20: withVisible(eval(quote(`_fseq`(`_lhs`)), env, env)) 21: newdata %>% dplyr::rowwise() %>% dplyr::do_(.mod = ~eval_newdata(., model = uneval_model, old_parameters = old_parameters)) %>% dplyr::bind_cols(newdata) 22: eval_model_newdata(x = model, model = n, newdata = newdata) 23: eval(expr, envir, enclos) 24: eval(lhs, parent, parent) 25: eval_model_newdata(x = model, model = n, newdata = newdata) %>% dplyr::rowwise() %>% dplyr::do_(~get_total_state_values(.$.mod)) %>% dplyr::bind_cols(newdata) %>% dplyr::ungroup() 26: run_probabilistic(model_runs, resample = inputs$param_info$psa_params, N = inputs$model_options$n) 27: eval_models_from_tabular(inputs, run_psa = run_psa, run_demo = run_demo) 28: run_models_tabular(location = system.file("tabular/thr", package = "heemod")) 29: eval(expr, envir, enclos) 30: eval(code, test_env) 31: withCallingHandlers(eval(code, test_env), expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error) 32: doTryCatch(return(expr), name, parentenv, handler) 33: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 34: tryCatchList(expr, names[-nh], parentenv, handlers[-nh]) 35: doTryCatch(return(expr), name, parentenv, handler) 36: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]]) 37: tryCatchList(expr, classes, parentenv, handlers) 38: tryCatch(withCallingHandlers(eval(code, test_env), expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = function(e) {}, skip = function(e) {}) 39: test_code(desc, code, env = parent.frame()) 40: test_that("Running model from files works.", { result <- run_models_tabular(location = system.file("tabular/thr", package = "heemod")) expect_identical(names(result), c("models", "model_runs", "dsa", "psa", "demographics")) expect_output(print(result$model_runs), "new -223.5199 0.04497522 -4969.845", fixed = TRUE) expect_output(print(result$dsa), "A sensitivity analysis on 6 parameters.", fixed = TRUE) expect_output(print(result$demographics), "An analysis re-run on 62 parameter sets.", fixed = TRUE)}) 41: eval(expr, envir, enclos) 42: eval(exprs, env) 43: source_file(path, new.env(parent = env), chdir = TRUE) 44: force(code) 45: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE) end_context() }) 46: FUN(X[[i]], ...) 47: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE) 48: force(code) 49: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE)) 50: test_files(paths, reporter = reporter, env = env, ...) 51: testthat::test_dir(test_path, filter = filter, env = env, ...) 52: force(code) 53: withr::with_envvar(r_env_vars(), testthat::test_dir(test_path, filter = filter, env = env, ...)) 54: devtools::test() An irrecoverable exception occurred. R is aborting now ...
The bug is intermittent. I did not find a way to reproduce it reliably. The problem probably comes from my laptop. Closing the issue for now.
My laptop is a 64bit Linux (Lubuntu). No problem on my MS Windows 32bit computer at work.